Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007090.1 Corchorus capsularis cultivar CVL-1 contig07111, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 11840
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31


Found at i:6844 original size:33 final size:33

Alignment explanation


    Indices: 6807--6881  Score: 89
    Period size: 33  Copynumber: 2.3  Consensus size: 33

       6797 AGCACTAGTG

                            *       *  *      
       6807 ACCGGCCA-TGCGACTTGGAGAAGTCCTGCCAAC
          1 ACCGGCCACT-CGACTCGGAGAAGCCCAGCCAAC

                      *          *           
       6840 ACCGGCCACTTGACTCGGAGATGCCCAGCCAAC
          1 ACCGGCCACTCGACTCGGAGAAGCCCAGCCAAC

                     
       6873 ACCGGCCAC
          1 ACCGGCCAC

       6882 ACGAGATGGA


Statistics
Matches: 36,  Mismatches: 5, Indels: 2
        0.84            0.12        0.05

Matches are distributed among these distances:
  33   35  0.97
  34    1  0.03

ACGTcount: A:0.24, C:0.39, G:0.25, T:0.12


Consensus pattern (33 bp):   
ACCGGCCACTCGACTCGGAGAAGCCCAGCCAAC

Found at i:7886 original size:8 final size:8

Alignment explanation


    Indices: 7873--7906  Score: 50
    Period size: 8  Copynumber: 4.1  Consensus size: 8

       7863 CAGCTTCTTG

                    
       7873 AAAAATTC
          1 AAAAATTC

                    
       7881 AAAAATTC
          1 AAAAATTC

                 *   
       7889 AGAAACTTC
          1 A-AAAATTC

                    
       7898 AAAAATTC
          1 AAAAATTC

             
       7906 A
          1 A

       7907 TAGCCGATTC


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
   8   16  0.70
   9    7  0.30

ACGTcount: A:0.59, C:0.15, G:0.03, T:0.24


Consensus pattern (8 bp):   
AAAAATTC
Done.